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Research Article

Rationalization and Design of the Complementarity Determining Region Sequences in an Antibody-Antigen Recognition Interface

  • Chung-Ming Yu equal contributor,

    equal contributor Contributed equally to this work with: Chung-Ming Yu, Hung-Pin Peng

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

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  • Hung-Pin Peng equal contributor,

    equal contributor Contributed equally to this work with: Chung-Ming Yu, Hung-Pin Peng

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Institute of Biomedical Informatics, National Yang-Ming University, Taipei, Taiwan, Bioinformatics Program, Taiwan International Graduate Program, Institute of Information Science, Academia Sinica, Taipei, Taiwan

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  • Ing-Chien Chen,

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

    X
  • Yu-Ching Lee,

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

    X
  • Jun-Bo Chen,

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Department of Computer Science, National Tsing-Hua University, Hsinchu, Taiwan

    X
  • Keng-Chang Tsai,

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

    X
  • Ching-Tai Chen,

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Institute of Bioinformatics and Systems Biology, National Chiao-Tung University, Hsinchu, Taiwan, Institute of Information Sciences, Academia Sinica, Taipei, Taiwan, Bioinformatics Program, Taiwan International Graduate Program, Institute of Information Science, Academia Sinica, Taipei, Taiwan

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  • Jeng-Yih Chang,

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

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  • Ei-Wen Yang,

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Institute of Information Sciences, Academia Sinica, Taipei, Taiwan

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  • Po-Chiang Hsu,

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

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  • Jhih-Wei Jian,

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Institute of Biomedical Informatics, National Yang-Ming University, Taipei, Taiwan, Bioinformatics Program, Taiwan International Graduate Program, Institute of Information Science, Academia Sinica, Taipei, Taiwan

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  • Hung-Ju Hsu,

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Graduate Institute of Life Sciences, National Defense University, Taipei, Taiwan

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  • Hung-Ju Chang,

    Affiliations: Genomics Research Center, Academia Sinica, Taipei, Taiwan, Institute of Biochemical Science, National Taiwan University, Taipei, Taiwan, Chemical Biology and Molecular Biophysics Program, Taiwan International Graduate Program, Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan

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  • Wen-Lian Hsu,

    Affiliation: Institute of Information Sciences, Academia Sinica, Taipei, Taiwan

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  • Kai-Fa Huang,

    Affiliation: Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan

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  • Alex Che Ma,

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

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  • An-Suei Yang mail

    yangas@gate.sinica.edu.tw

    Affiliation: Genomics Research Center, Academia Sinica, Taipei, Taiwan

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  • Published: March 22, 2012
  • DOI: 10.1371/journal.pone.0033340

About the Authors

Chung-Ming Yu, Hung-Pin Peng, Ing-Chien Chen, Yu-Ching Lee, Jun-Bo Chen, Keng-Chang Tsai, Ching-Tai Chen, Jeng-Yih Chang, Ei-Wen Yang, Po-Chiang Hsu, Jhih-Wei Jian, Hung-Ju Hsu, Hung-Ju Chang, Alex Che Ma, An-Suei Yang
Genomics Research Center, Academia Sinica, Taipei, Taiwan
Hung-Pin Peng, Jhih-Wei Jian
Institute of Biomedical Informatics, National Yang-Ming University, Taipei, Taiwan
Jun-Bo Chen
Department of Computer Science, National Tsing-Hua University, Hsinchu, Taiwan
Ching-Tai Chen
Institute of Bioinformatics and Systems Biology, National Chiao-Tung University, Hsinchu, Taiwan
Ching-Tai Chen, Ei-Wen Yang, Wen-Lian Hsu
Institute of Information Sciences, Academia Sinica, Taipei, Taiwan
Hung-Ju Hsu
Graduate Institute of Life Sciences, National Defense University, Taipei, Taiwan
Hung-Ju Chang
Institute of Biochemical Science, National Taiwan University, Taipei, Taiwan
Kai-Fa Huang
Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan
Hung-Pin Peng, Ching-Tai Chen, Jhih-Wei Jian
Bioinformatics Program, Taiwan International Graduate Program, Institute of Information Science, Academia Sinica, Taipei, Taiwan
Hung-Ju Chang
Chemical Biology and Molecular Biophysics Program, Taiwan International Graduate Program, Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan

Corresponding Author

Email: yangas@gate.sinica.edu.tw

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: ASY CMY HPP. Performed the experiments: CMY ICC YCL HJH HJC. Analyzed the data: CMY HPP. Contributed reagents/materials/analysis tools: KFH ACM. Wrote the paper: CMY HPP ASY. Designed and coded the software used in analysis:HPP JBC KCT CTC JYC EWY PCH JWJ WLH.